An electron backscatter diffraction study of geesops: a broader view of trilobite vision?

The calcite eyes of trilobites have been studied for over 100 years using methods including light microscopy (e.g. Clarke 1889; Campbell 1975; Towe 1973; Clarkson 1979 and Bruton and Haas 2003) and more recently cathodoluminescence (CL) imaging coupled with scanning electron microscopy (SEM) of samples etched in EDTA (Miller and Clarkson 1980). This work has provided a great deal of information on the mechanisms by which lenses collected light, drawing attention to the importance of the crystallographic orientation of lens calcite for focusing, and leading to sophisticated models of trilobite vision (Clarkson and Levi-Setti, 1975; Gál et al., 2000). The morphology and mode of life of phacopids, in particular Geesops, are well understood (Bruton and Haas, 2003a; 2003b) but observations on the internal structure of their lenses contradict the generally accepted models for image formation by schizochroal eyes. Recent technological advances have given new impetus to the analysis of crystalline materials and especially important has been electron backscatter diffraction (EBSD). This is a SEM-based technique that can be used to accurately ‘map’ variations in the crystallographic orientation of a sample down to the sub-micrometre scale by recording on a sensitive camera Kikuchi patterns that are formed by diffraction of an electron beam when focused on a polished sample tilted at 70°. Although this technique has been understood for over 50 years (Alam et al., 1954) and has been extensively used in disciplines such as metallography (Humphreys, 2001), until recently its Earth Science applications were limited to studies of structural geology and petrology (Nuchter and Stockhert, 2007). Recent applications of EBSD to biomineralisation research (Dalbeck and Cusack, 2006; Griesshaber et al., 2007) have mapped the crystal orientation and microstructure of calcite shells and in 2006 Lee et al. were able to apply this technique to investigating the microstructure of lenses in the schizochroal eye of Dalmanites. This paper describes results of an EBSD study of eyes of Geesops schlotheimi (Bronn, 1825) combined with more traditional microscopy techniques to reveal new aspects of trilobite lens structure

A simulation model of Rhizome networks for Fallopia japonica (Japanese Knotweed) in the United Kingdom

Fallopia japonica (Japanese knotweed) is an aggressively invasive herbaceous perennial that causes substantial economic and environmental damage in the United Kingdom (UK). As such, it is of considerable concern to councils, environmental groups, private landowners and property developers. We construct a 3D correlated random walk model of the development of the subterranean rhizome network for a single stand of F. japonica. The formulation of this model uses detailed knowledge of the morphology and physiology of the plant, both of which differ in the UK to that of its native habitat due to factors including a lack of predation and competition, longer growth seasons and favourable environmental conditions in the UK. Field data obtained as a part of this study are discussed and used in the model for parameterisation and validation. The simulation captures the field data well and predicts, for example, quadratic growth in time for the stand area. Furthermore, the role of a selection of parameters on long-term stand development are discussed, highlighting some key factors affecting vegetative spread rates

Determining patterns in the composition of dissolved organic matter in fresh waters according to land use and management

In fresh waters, the origins of dissolved organic matter (DOM) have been found to exert a fundamental control on its reactivity, and ultimately, its ecosystem functional role. A detailed understanding of landscape scale factors that control the export of DOM to aquatic ecosystems is, therefore, pivotal if the effects of DOM flux to fresh waters are to be fully understood. In this study we present data from a national sampling campaign across the United Kingdom in which we explore the variability in DOM composition in three broad landscape types defined by similar precipitation, geology, land use and management, hydrology, and nutrient enrichment status. We characterised samples from fifty-one sites, grouping them into one of three major underlying classifications: circumneutral streams underlain by clay and mudstone (referred to as ‘clay’), alkaline streams underlain by Cretaceous Chalk or by Carboniferous or Jurassic Limestone (‘limestone’), and acidic streams in peatland catchments underlain by a range of low permeability lithologies (‘peat’). DOM composition was assessed through organic matter stoichiometry (organic carbon: organic nitrogen; organic carbon: organic phosphorus; C/N(P)DOM) and metrics derived from ultra-violet (UV)/visible spectroscopic analysis of DOM such as specific UV absorption (a254 nm; SUVA254). We found similar SUVA254, C/NDOM and DOM/a254 relationships within classifications, demonstrating that despite a large degree of heterogeneity within environments, catchments with shared environmental character and anthropogenic disturbance export DOM with a similar composition and character. Improving our understanding of DOM characterisation is important to help predict shifts in stream ecosystem function, and ecological responses to enrichment or mitigation efforts and how these may result in species composition shifts and biodiversity loss in freshwater ecosystems

Modelling the emergence of cities and urban patterning using coupled integro-differential equations

Human residential population distributions show patterns of higher density clustering around local services such as shops and places of employment, displaying characteristic length scales; Fourier transforms and spatial autocorrelation show the length scale between UK cities is around 45 km. We use integro-differential equations to model the spatio-temporal dynamics of population and service density under the assumption that they benefit from spatial proximity, captured via spatial weight kernels. The system tends towards a well-mixed homogeneous state or a spatial pattern. Linear stability analysis around the homogeneous steady state predicts a modelled length-scale consistent with that observed in the data. Moreover, we show that spatial instability occurs only for perturbations with a sufficiently long wavelength and only where there is a sufficiently strong dependence of service potential on population density. Within urban centres, competition for space may cause services and population to be out of phase with one another, occupying separate parcels of land. By introducing competition, along with a preference for population to be located near, but not too near, to high service density areas, secondary out-of-phase patterns occur within the model, at a higher density and with a shorter length scale than in phase patterning. Thus, we show that a small set of core behavioural ingredients can generate aggregations of populations and services, and pattern formation within cities, with length scales consistent with real-world data. The analysis and results are valid across a wide range of parameter values and functional forms in the model

Critical currents in Josephson junctions, with unconventional pairing symmetry: dx2−y2+isd_{x^2-y^2}+is versus dx2−y2+idxyd_{x^2-y^2}+id_{xy}

Phenomenological Ginzburg-Landau theory is used to calculate the possible spontaneous vortex states that may exist at corner junctions of $d_{x^2-y^2}+ix$-wave, (where $x=s$ or $x=d_{xy}$) and s-wave superconductors. We study the magnetic flux and the critical current modulation with the junction orientation angle $\theta$, the magnitude of the order parameter, and the magnetic field $H$. It is seen that the critical current $I_c$ versus the magnetic flux $\Phi$ relation is symmetric / asymmetric for $x=d_{xy}/s$ when the orientation is exactly such that the lobes of the dominant $d_{x^2-y^2}$-wave order parameter points towards the two junctions, which are at right angles for the corner junction. The conclusion is that a measurement of the $I_c(\Phi)$ relation may distinguish which symmetry ($d_{x^2-y^2}+is$ or $d_{x^2-y^2}+id_{xy}$) the order parameter has.Comment: 11 pages with 11 figures, Changed conten

Post-fragmentation vesiculation timescales in hydrous rhyolitic bombs from Chaitén volcano

Bubble nucleation and growth dynamics exert a primary control on the explosivity of volcanic eruptions. Numerous theoretical and experimental studies aim to capture the complex process of melt vesiculation, whereas textural studies use vesicle populations to reconstruct magma behaviour. However, post-fragmentation vesiculation in rhyolitic bombs can create final quenched bubble (vesicle) textures that are not representative of the nature of fragmenting magma within the conduit. To examine bubble growth in hydrous rhyolitic bombs, we have used heated stage microscopy to directly observe vesiculation of a Chaitén rhyolite melt (with an initial dissolved water content of ~0.95 wt %) at atmospheric pressure and magmatic temperatures upon reheating. Thin wafers of obsidian were held from 5 min up to two days in the heated stage at temperatures between 575 °C and 875 °C. We found that bubble growth rates, measured through changes in bubble diameter, increased with both temperature and bubble size. The average growth rate at the highest temperature of 875 °C is ~1.27 μm s−1, which is substantially faster than the lowest detected growth rate of ~0.02 μm s−1 at 725 °C; below this temperature no growth was observed. Average growth rate Vr follows an exponential relationship with temperature, T and inferred melt viscosity η, where Vr = 5.57×10−7e0.016T and Vr = 3270e−1.117η. Several stages of evolving bubble morphology were directly observed, including initial relaxation of deformed bubbles into spheres, extensive growth of spheres, and, at higher temperatures, close packing and foam formation. Bubble deformation due to bubble-bubble interaction and coalescence was observed in most experiments. We use our simple, experimentally-determined relationship between melt viscosity and bubble growth rates to model post-fragmentation vesicle growth in a cooling 1 m-diameter rhyolitic bomb. The results, which indicate negligible vesicle growth within 2–3 cm of the bomb surface, correspond well with the observed dense margin thickness of a Chaitén bomb of comparable dimensions. The experiments described can be used to effectively reconstruct the post-fragmentation vesiculation history of bombs through simple analytical expressions which provide a useful tool for aiding in the interpretation of pumiceous endmember textures in hydrous rhyolitic bombs

An assessment of the resolution limitation due to radiation-damage in x-ray diffraction microscopy

X-ray diffraction microscopy (XDM) is a new form of x-ray imaging that is being practiced at several third-generation synchrotron-radiation x-ray facilities. Although only five years have elapsed since the technique was first introduced, it has made rapid progress in demonstrating high-resolution threedimensional imaging and promises few-nm resolution with much larger samples than can be imaged in the transmission electron microscope. Both life- and materials-science applications of XDM are intended, and it is expected that the principal limitation to resolution will be radiation damage for life science and the coherent power of available x-ray sources for material science. In this paper we address the question of the role of radiation damage. We use a statistical analysis based on the so-called "dose fractionation theorem" of Hegerl and Hoppe to calculate the dose needed to make an image of a lifescience sample by XDM with a given resolution. We conclude that the needed dose scales with the inverse fourth power of the resolution and present experimental evidence to support this finding. To determine the maximum tolerable dose we have assembled a number of data taken from the literature plus some measurements of our own which cover ranges of resolution that are not well covered by reports in the literature. The tentative conclusion of this study is that XDM should be able to image frozen-hydrated protein samples at a resolution of about 10 nm with "Rose-criterion" image quality.Comment: 9 pages, 4 figure

A Mathematical Model of Liver Cell Aggregation In Vitro

The behavior of mammalian cells within three-dimensional structures is an area of intense biological research and underpins the efforts of tissue engineers to regenerate human tissues for clinical applications. In the particular case of hepatocytes (liver cells), the formation of spheroidal multicellular aggregates has been shown to improve cell viability and functionality compared to traditional monolayer culture techniques. We propose a simple mathematical model for the early stages of this aggregation process, when cell clusters form on the surface of the extracellular matrix (ECM) layer on which they are seeded. We focus on interactions between the cells and the viscoelastic ECM substrate. Governing equations for the cells, culture medium, and ECM are derived using the principles of mass and momentum balance. The model is then reduced to a system of four partial differential equations, which are investigated analytically and numerically. The model predicts that provided cells are seeded at a suitable density, aggregates with clearly defined boundaries and a spatially uniform cell density on the interior will form. While the mechanical properties of the ECM do not appear to have a significant effect, strong cell-ECM interactions can inhibit, or possibly prevent, the formation of aggregates. The paper concludes with a discussion of our key findings and suggestions for future work

The composition of the protosolar disk and the formation conditions for comets

Conditions in the protosolar nebula have left their mark in the composition of cometary volatiles, thought to be some of the most pristine material in the solar system. Cometary compositions represent the end point of processing that began in the parent molecular cloud core and continued through the collapse of that core to form the protosun and the solar nebula, and finally during the evolution of the solar nebula itself as the cometary bodies were accreting. Disentangling the effects of the various epochs on the final composition of a comet is complicated. But comets are not the only source of information about the solar nebula. Protostellar disks around young stars similar to the protosun provide a way of investigating the evolution of disks similar to the solar nebula while they are in the process of evolving to form their own solar systems. In this way we can learn about the physical and chemical conditions under which comets formed, and about the types of dynamical processing that shaped the solar system we see today. This paper summarizes some recent contributions to our understanding of both cometary volatiles and the composition, structure and evolution of protostellar disks.Comment: To appear in Space Science Reviews. The final publication is available at Springer via http://dx.doi.org/10.1007/s11214-015-0167-